Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 12 | 10 | 9 | 18.03 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| EDLGPGCJ_13 | 212207 | 212800 | tmrB | ARO:3003059 | tmrB | 99.49 | 100.00 | AL009126.3 |
| EDLGPGCJ_24 | 101745 | 102062 | ykkD | ARO:3003064 | ykkD | 98.10 | 100.00 | AL009126.1 |
| EDLGPGCJ_24 | 101407 | 101745 | ykkC | ARO:3003063 | ykkC | 98.21 | 100.00 | AL009126.1 |
| EDLGPGCJ_50 | 47896 | 49335 | lmrB | ARO:3002813 | lmrB | 99.58 | 100.42 | JYFL01000006.1 |
| EDLGPGCJ_50 | 35081 | 36001 | mphK | ARO:3004541 | mphK | 98.68 | 100.00 | CP010314.1 |
| EDLGPGCJ_10 | 15311 | 16165 | aadK | ARO:3002627 | aadK | 98.59 | 100.00 | AL009126.1 |
| EDLGPGCJ_55 | 13039 | 14685 | vmlR | ARO:3004476 | vmlR | 98.36 | 100.18 | NC_000964.3 |
| EDLGPGCJ_35 | 8633 | 9835 | blt | ARO:3003006 | blt | 99.00 | 100.00 | L32599.1 |
| EDLGPGCJ_49 | 207 | 2777 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.77 | 100.00 | AL009126.3 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| EDLGPGCJ_31 | 34755 | 35892 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.21 | 82.64 | X08034 |
| EDLGPGCJ_10 | 15311 | 16165 | aadK | Streptomycin | 98.83 | 100.00 | M26879 |
| EDLGPGCJ_50 | 35081 | 36001 | mph(K) | Spiramycin, Telithromycin | 98.05 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| EDLGPGCJ_50 | 35081 | 35989 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.68 | 99.02 | WP_003246254.1 |
| EDLGPGCJ_10 | 15314 | 16165 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.59 | 100.00 | WP_003229862.1 |
| EDLGPGCJ_55 | 13042 | 14685 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.36 | 100.00 | WP_003234144.1 |
| EDLGPGCJ_31 | 34755 | 35909 | tet(L) | tetracycline efflux MFS transporter Tet(L) | PARTIALX | 97.66 | 84.06 | WP_003242953.1 |
| EDLGPGCJ_31 | 37359 | 37877 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 90.75 | 100.00 | WP_003242546.1 |
| EDLGPGCJ_29 | 4673 | 7270 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.48 | 100.00 | WP_087347987.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| EDLGPGCJ_2 | 267281 | 268462 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| EDLGPGCJ_2 | 265656 | 266798 | capA | 0.0 | Capsule | Immune modulation | 99.30 | 100.00 | NP_391469 |
| EDLGPGCJ_4 | 113243 | 114028 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.24 | 100.00 | NP_391080 |
| EDLGPGCJ_29 | 58345 | 60108 | dep/capD | 0.0 | Capsule | Immune modulation | 98.98 | 100.00 | NP_389723 |
| EDLGPGCJ_4 | 109418 | 110356 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.94 | 100.00 | NP_391077 |
| EDLGPGCJ_19 | 143889 | 144530 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 98.91 | 100.00 | NP_390062 |
| EDLGPGCJ_2 | 266817 | 267266 | capC | 0.0 | Capsule | Immune modulation | 98.89 | 100.00 | NP_391470 |
| EDLGPGCJ_4 | 102262 | 109398 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.61 | 100.00 | NP_391076 |
| EDLGPGCJ_4 | 112021 | 113217 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.58 | 100.00 | NP_391079 |
| EDLGPGCJ_4 | 110384 | 112003 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 97.28 | 100.00 | NP_391078 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| EDLGPGCJ_6 | 31835 | 32971 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| EDLGPGCJ_14 | 4668 | 5537 | pdxS | 1.15e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| EDLGPGCJ_5 | 98116 | 97340 | CodY | 1.74e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| EDLGPGCJ_2 | 122176 | 122745 | ClpP | 1.75e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| EDLGPGCJ_20 | 23427 | 23819 | spxA1 | 4.13e-71 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| EDLGPGCJ_20 | 23427 | 23819 | spx | 2.46e-69 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| EDLGPGCJ_43 | 11224 | 11466 | SpoVG | 6.28e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| EDLGPGCJ_52 | 33196 | 32999 | CspA | 1.66e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| EDLGPGCJ_19 | 132660 | 132466 | CspD | 1.45e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| EDLGPGCJ_53 | 1377 | 1571 | CspB | 2.89e-28 | cold shock protein | 83.08 | 98.48 | CAD00094 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| EDLGPGCJ_39 | 1900 | 2093 | Col(SD853) | 194 / 194 | 97.94 | NC015392 |
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| EDLGPGCJ_1 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_2 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_3 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_4 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_5 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_6 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_7 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_8 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_9 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_10 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_11 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_12 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_13 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_14 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_15 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_16 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_17 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_18 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_19 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_20 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_21 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_22 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_23 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_24 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_25 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_26 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_27 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_28 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_29 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_30 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_31 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_33 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_34 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_35 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_36 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_37 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_38 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_39 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_40 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_41 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_42 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_43 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_44 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_45 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_46 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_48 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_49 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_50 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_51 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_52 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_53 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_54 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_55 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_56 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_57 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_58 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_59 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_61 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_63 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_64 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_65 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_66 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_67 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_68 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_69 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_70 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_71 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_72 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_73 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_74 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_75 | 1.0 | 0.0 | 1.0 |
| EDLGPGCJ_76 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_77 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_78 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_79 | 0.0 | 1.0 | 0.0 |
| EDLGPGCJ_80 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| EDLGPGCJ_1 | 257 | 26590 | False | Siphoviridae | VOG6243, VOG4612, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG2935, VOG4544, VOG4581, VOG4556, VOG4841, VOG0531, VOG0198, VOG5395, VOG0044, VOG5607, VOG2752, VOG4606 |
| EDLGPGCJ_2 | 572 | 24558 | False | Siphoviridae | VOG4612, VOG4626, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG9583, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG9029, VOG0275, VOG0198, VOG6581, VOG0397 |
| EDLGPGCJ_2 | 29161 | 33086 | False | Siphoviridae | VOG7581, VOG9667, VOG9667, VOG1563 |
| EDLGPGCJ_24 | 45267 | 71943 | False | Myoviridae | VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)